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Finite-State Molecular Computing

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Implementation and Application of Automata (CIAA 2003)

Part of the book series: Lecture Notes in Computer Science ((LNCS,volume 2759))

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Abstract

In this paper we explore the molecular computation model based on a splicing system and implemented in vitro by Shapiro. This paper presents two implementations, one implementing an FSA with two states, and the other one with three states, using enzymes BseMII and BseXI, respectively, which are different from only the one — FokI — used by Shapiro, et al. for their two-state FSA. The model of three-state, two-input symbol machine supports 1.835.001 syntactically distinct programs in comparison with 765 programs in Shapiro’s approach.

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References

  1. Benenson, Y., Paz-Elitzur, T., Adar, R., Keinan, E., Livneh, Z. and Shapiro, E.: Programmable Computing Machine Made of Biomolecules, Nature 414 (2001) 430–434

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  2. Head, T.: Formal Language Theory and DNA: an Analysis of the Generative Capacity of Specific Recombinant Behaviors. Bull. Math. Biol. 49 (1987) 6, 737-759

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  3. Unold, O., Troć, M.: Restriction Enzyme Computation, 7th International Work-Conference on Artificial and Natural Neural Networks, IWANN 2003, Lecture Notes in Computer Science (2003) (to appear)

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Author information

Authors and Affiliations

  1. Institute of Engineering Cybernetics, Wroclaw University of Technology, Wyb. Wyspianskiego 27, 50-370, Wroclaw, Poland

    Olgierd Unold & Maciej Troć

  2. Institute of Forensic Medicine, Medical University, Mikulicza-Radeckiego 4, 50-368, Wroclaw, Poland

    Tadeusz Dobosz & Alicja Trusewicz

Authors
  1. Olgierd Unold
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  2. Maciej Troć
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  3. Tadeusz Dobosz
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  4. Alicja Trusewicz
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Editor information

Editors and Affiliations

  1. Department of Computer Science, University of California, Santa Barbara, CA, 93106, USA

    Oscar H. Ibarra

  2. School of Electrical Engineering and Computer Science, Washington State University, Pullman, WA, 99163, USA

    Zhe Dang

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© 2003 Springer-Verlag Berlin Heidelberg

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Cite this paper

Unold, O., Troć, M., Dobosz, T., Trusewicz, A. (2003). Finite-State Molecular Computing. In: Ibarra, O.H., Dang, Z. (eds) Implementation and Application of Automata. CIAA 2003. Lecture Notes in Computer Science, vol 2759. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-45089-0_33

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  • DOI: https://doi.org/10.1007/3-540-45089-0_33

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  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-40561-0

  • Online ISBN: 978-3-540-45089-4

  • eBook Packages: Springer Book Archive

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